| 1317 | -- | 1325 | Sandeep Manandhar, Patrick Bouthemy, Erik Welf, Gaudenz Danuser, Philippe Roudot, Charles Kervrann. 3D flow field estimation and assessment for live cell fluorescence microscopy |
| 1326 | -- | 1332 | Victoria A. Sleight, Philipp Antczak, Francesco Falciani, Melody S. Clark. Computationally predicted gene regulatory networks in molluscan biomineralization identify extracellular matrix production and ion transportation pathways |
| 1333 | -- | 1343 | Renmin Han, Sheng Wang 0001, Xin Gao 0001. Novel algorithms for efficient subsequence searching and mapping in nanopore raw signals towards targeted sequencing |
| 1344 | -- | 1350 | Daiwei Tang, Seyoung Park, Hongyu Zhao. NITUMID: Nonnegative matrix factorization-based Immune-TUmor MIcroenvironment Deconvolution |
| 1351 | -- | 1359 | Liam F. Spurr, Nawaf Alomran, Pavlos Bousounis, Dacian Reece-Stremtan, N. M. Prashant, Hongyu Liu, Piotr Slowinski, Muzi Li, Qianqian Zhang, Justin Sein, Gabriel Asher, Keith A. Crandall, Krasimira Tsaneva-Atanasova, Anelia Horvath. ReQTL: identifying correlations between expressed SNVs and gene expression using RNA-sequencing data |
| 1360 | -- | 1366 | Bong-Hyun Kim, Kijin Yu, Peter C. W. Lee. Cancer classification of single-cell gene expression data by neural network |
| 1367 | -- | 1373 | Raphaël Mourad. Studying 3D genome evolution using genomic sequence |
| 1374 | -- | 1381 | Antoine Limasset, Jean-François Flot, Pierre Peterlongo. Toward perfect reads: self-correction of short reads via mapping on de Bruijn graphs |
| 1382 | -- | 1390 | Kohei Hagiwara, Liang Ding, Michael Edmonson, Stephen V. Rice, Scott Newman, John Easton, Juncheng Dai, Soheil Meshinchi, Rhonda E. Ries, Michael Rusch, Jinghui Zhang. RNAIndel: discovering somatic coding indels from tumor RNA-Seq data |
| 1391 | -- | 1396 | Jian-Peng Zhou, Lei Chen 0007, Zi-Han Guo. iATC-NRAKEL: an efficient multi-label classifier for recognizing anatomical therapeutic chemical classes of drugs |
| 1397 | -- | 1404 | Chencheng Xu, Qiao Liu, Jianyu Zhou, Minzhu Xie, Jianxing Feng, Tao Jiang 0001. Quantifying functional impact of non-coding variants with multi-task Bayesian neural network |
| 1405 | -- | 1412 | Xiao Luo, Xinming Tu, Yang Ding, Ge Gao, Minghua Deng. Expectation pooling: an effective and interpretable pooling method for predicting DNA-protein binding |
| 1413 | -- | 1419 | Thomas Büchler, Enno Ohlebusch. An improved encoding of genetic variation in a Burrows-Wheeler transform |
| 1420 | -- | 1428 | David Becerra, Alexander Butyaev, Jérôme Waldispühl. Fast and flexible coarse-grained prediction of protein folding routes using ensemble modeling and evolutionary sequence variation |
| 1429 | -- | 1438 | Abdurrahman Elbasir, Raghvendra Mall, Khalid Kunji, Reda Rawi, Zeyaul Islam, Gwo-Yu Chuang, Prasanna R. Kolatkar, Halima Bensmail. BCrystal: an interpretable sequence-based protein crystallization predictor |
| 1439 | -- | 1444 | Puneet Rawat, R. Prabakaran, Sandeep Kumar, M. Michael Gromiha. AggreRATE-Pred: a mathematical model for the prediction of change in aggregation rate upon point mutation |
| 1445 | -- | 1452 | Qingzhen Hou, Jean Marc Kwasigroch, Marianne Rooman, Fabrizio Pucci. SOLart: a structure-based method to predict protein solubility and aggregation |
| 1453 | -- | 1459 | Yoochan Myung, Carlos H. M. Rodrigues, David B. Ascher, Douglas E. V. Pires. mCSM-AB2: guiding rational antibody design using graph-based signatures |
| 1460 | -- | 1467 | Amir Vajdi, Kourosh Zarringhalam, Nurit Haspel. Patch-DCA: improved protein interface prediction by utilizing structural information and clustering DCA scores |
| 1468 | -- | 1475 | Giacomo Baruzzo, Ilaria Patuzzi, Barbara Di Camillo. SPARSim single cell: a count data simulator for scRNA-seq data |
| 1476 | -- | 1483 | Runpu Chen, Le Yang, Steve Goodison, Yijun Sun. Deep-learning approach to identifying cancer subtypes using high-dimensional genomic data |
| 1484 | -- | 1491 | Magdalena E. Strauß, Paul D. W. Kirk, John E. Reid, Lorenz Wernisch. GPseudoClust: deconvolution of shared pseudo-profiles at single-cell resolution |
| 1492 | -- | 1500 | Hamed Haselimashhadi, Jeremy C. Mason, Violeta Munoz-Fuentes, Federico López-Gómez, Kolawole O. Babalola, Elif F. Acar, Vivek Kumar, Jacqui White, Ann M. Flenniken, Ruairidh King, Ewan Straiton, John Richard Seavitt, Angelina Gaspero, Arturo Garza, Audrey E. Christianson, Chih-Wei Hsu, Corey L. Reynolds, Denise G. Lanza, Isabel Lorenzo, Jennie R. Green, Juan J. Gallegos, Ritu Bohat, Rodney C. Samaco, Surabi Veeraragavan, Jong Kyoung Kim, Gregor Miller, Helmut Fuchs, Lillian Garrett, Lore Becker, Yeon Kyung Kang, David Clary, Soo Young Cho, Masaru Tamura, Nobuhiko Tanaka, Kyung Dong Soo, Alexandr Bezginov, Ghina Bou About, Marie-France Champy, Laurent Vasseur, Sophie Leblanc, Hamid Meziane, Mohammed Selloum, Patrick T. Reilly, Nadine Spielmann, Holger Maier, Valérie Gailus-Durner, Tania Sorg, Hiroshi Masuya, Yuichi Obata, Jason D. Heaney, Mary E. Dickinson, Wolfgang Wurst, Glauco P. Tocchini-Valentini, Kevin C. Kent Lloyd, Colin McKerlie, Je Kyung Seong, Yann Herault, Martin Hrabé de Angelis, Steve D. M. Brown, Damian Smedley, Paul Flicek, Ann-Marie Mallon, Helen E. Parkinson, Terrence F. Meehan. Soft windowing application to improve analysis of high-throughput phenotyping data |
| 1501 | -- | 1508 | Jia Zhao, Jingsi Ming, Xianghong Hu, Gang Chen, Jin Liu 0011, Can Yang. Bayesian weighted Mendelian randomization for causal inference based on summary statistics |
| 1509 | -- | 1516 | Andrew W. George, Arunas Verbyla, Joshua Bowden. Eagle: multi-locus association mapping on a genome-wide scale made routine |
| 1517 | -- | 1521 | Leilei Cui 0004, Bin Yang, Nikolas Pontikos, Richard Mott, Lusheng Huang. ADDO: a comprehensive toolkit to detect, classify and visualize additive and non-additive quantitative trait loci |
| 1522 | -- | 1532 | Rui Liu 0009, Pei Chen, Luonan Chen. Single-sample landscape entropy reveals the imminent phase transition during disease progression |
| 1533 | -- | 1541 | Suyang Dai, Ronghui You, Zhiyong Lu, Xiaodi Huang, Hiroshi Mamitsuka, Shanfeng Zhu. FullMeSH: improving large-scale MeSH indexing with full text |
| 1542 | -- | 1552 | Zheng Chen, Meng Pang, Zixin Zhao, Shuainan Li, Rui Miao, Yifan Zhang, Xiaoyue Feng, Xin Feng 0004, Yexian Zhang, Meiyu Duan, Lan Huang, Fengfeng Zhou. Feature selection may improve deep neural networks for the bioinformatics problems |
| 1553 | -- | 1561 | Paolo Mignone, Gianvito Pio, Domenica D'Elia, Michelangelo Ceci. Exploiting transfer learning for the reconstruction of the human gene regulatory network |
| 1562 | -- | 1569 | Antonino Lauria, Salvatore Mannino, Carla Gentile, Giuseppe Mannino, Annamaria Martorana, Daniele Peri. DRUDIT: web-based DRUgs DIscovery Tools to design small molecules as modulators of biological targets |
| 1570 | -- | 1576 | Nooshin Shomal Zadeh, Sangdi Lin, George C. Runger. Matched Forest: supervised learning for high-dimensional matched case-control studies |
| 1577 | -- | 1583 | Yu Liu, Paul W. Bible, Bin Zou, Qiaoxing Liang, Cong Dong, Xiaofeng Wen, Yan Li, Xiaofei Ge, Xifang Li, Xiuli Deng, Rong Ma, Shixin Guo, Juanran Liang, Tingting Chen, Wenliang Pan, Lixin Liu, Wei Chen, Xueqin Wang, Lai Wei. CSMD: a computational subtraction-based microbiome discovery pipeline for species-level characterization of clinical metagenomic samples |
| 1584 | -- | 1589 | Eiru Kim, Dasom Bae, Sunmo Yang, Gunhwan Ko, Sungho Lee, Byungwook Lee, Insuk Lee. BiomeNet: a database for construction and analysis of functional interaction networks for any species with a sequenced genome |
| 1590 | -- | 1598 | Daniel Jimenez-Carretero, Mikel Ariz, José Mário T. Morgado, Iván Cortés-Domínguez, Carlos Ortiz-de-Solórzano. NMF-RI: blind spectral unmixing of highly mixed multispectral flow and image cytometry data |
| 1599 | -- | 1606 | Yizhi Wang, Congchao Wang, Petter Ranefall, Gerard Broussard, Yinxue Wang, Guilai Shi, Boyu Lyu, Chiung-Ting Wu, Yue Wang, Lin Tian, Guoqiang Yu. SynQuant: an automatic tool to quantify synapses from microscopy images |
| 1607 | -- | 1613 | Joseph Boyd, Alice Pinheiro, Elaine Del Nery, Fabien Reyal, Thomas Walter 0003. Domain-invariant features for mechanism of action prediction in a multi-cell-line drug screen |
| 1614 | -- | 1621 | Jeremy A. Pike, Abdullah O. Khan, Chiara Pallini, Steven G. Thomas, Markus Mund, Jonas Ries, Natalie S. Poulter, Iain B. Styles. Topological data analysis quantifies biological nano-structure from single molecule localization microscopy |
| 1622 | -- | 1624 | Andrea Calabria, Stefano Beretta 0001, Ivan Merelli, Giulio Spinozzi, Stefano Brasca, Yuri Pirola, Fabrizio Benedicenti, Erika Tenderini, Paola Bonizzoni, Luciano Milanesi, Eugenio Montini. γ-TRIS: a graph-algorithm for comprehensive identification of vector genomic insertion sites |
| 1625 | -- | 1626 | Cheng Yee Tang, Rick Twee-Hee Ong. MIRUReader: MIRU-VNTR typing directly from long sequencing reads |
| 1627 | -- | 1628 | Christopher N. Larsen, Guangyu Sun, Xiaomei Li, Sam Zaremba, Hongtao Zhao, Sherry He, Liwei Zhou, Sanjeev Kumar, Vincent Desborough, Edward B. Klem. Mat_peptide: comprehensive annotation of mature peptides from polyproteins in five virus families |
| 1629 | -- | 1631 | Catherine Badel, Violette Da Cunha, Ryan Catchpole, Patrick Forterre, Jacques Oberto. WASPS: web-assisted symbolic plasmid synteny server |
| 1632 | -- | 1633 | Adam T. Lafontaine, Bruce J. Mayer, Kazuya Machida. Dynalogo: an interactive sequence logo with dynamic thresholding of matched quantitative proteomic data |
| 1634 | -- | 1636 | Raphaël Leman, Valentin Harter, Alexandre Atkinson, Grégoire Davy, Antoine Rousselin, Etienne Muller, Laurent Castéra, Fréderic Lemoine, Pierre de la Grange, Marine Guillaud-Bataille, Dominique Vaur, Sophie Krieger. SpliceLauncher: a tool for detection, annotation and relative quantification of alternative junctions from RNAseq data |
| 1637 | -- | 1639 | Simon Steffens, Xiuling Fu, Fangfang He, Yuhao Li, Isaac A. Babarinde, Andrew P. Hutchins. DPre: computational identification of differentiation bias and genes underlying cell type conversions |
| 1640 | -- | 1641 | Pencho Yordanov, Jörg Stelling, Irene Otero-Muras. BioSwitch: a tool for the detection of bistability and multi-steady state behaviour in signalling and gene regulatory networks |
| 1642 | -- | 1643 | Yu Tian, Ling Wu, Le Yuan, Shaozhen Ding, Fu Chen, Tong Zhang, Ailin Ren, Dachuan Zhang, Weizhong Tu, Junni Chen, Qian-Nan Hu. BCSExplorer: a customized biosynthetic chemical space explorer with multifunctional objective function analysis |
| 1644 | -- | 1646 | Nikolay Martyushenko, Eivind Almaas. ErrorTracer: an algorithm for identifying the origins of inconsistencies in genome-scale metabolic models |
| 1647 | -- | 1648 | Bilal Wajid, Hasan Iqbal, Momina Jamil, Hafsa Rafique, Faria Anwar. MetumpX - a metabolomics support package for untargeted mass spectrometry |
| 1649 | -- | 1651 | Moli Huang, Yunpeng Wang, Manqiu Yang, Jun Yan, Henry Yang, Wenzhuo Zhuang, Ying Xu, H. Phillip Koeffler, De-Chen Lin, Xi Chen. dbInDel: a database of enhancer-associated insertion and deletion variants by analysis of H3K27ac ChIP-Seq |
| 1652 | -- | 1653 | David Sánchez 0001, Sergio Martínez, Josep Domingo-Ferrer, Jordi Soria-Comas, Montserrat Batet. µ-ANT: semantic microaggregation-based anonymization tool |